Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000450.1 Hibiscus syriacus cultivar Beakdansim tig00000825_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 183353
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:10825 original size:31 final size:31
Alignment explanation
Indices: 10769--10835 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
10759 CAGATGGTAA
* *
10769 AGAGATTAGAAGGGGAAAGAGAAGATGGTGG
1 AGAGATTAGAAGGAGAAAGAGAAGATGATGG
* *
10800 CGAGATTAGAAAGGAG-AAGATAAGATGATGG
1 AGAGATTAG-AAGGAGAAAGAGAAGATGATGG
10831 AGAGA
1 AGAGA
10836 GTTTTGAAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.45, C:0.01, G:0.40, T:0.13
Consensus pattern (31 bp):
AGAGATTAGAAGGAGAAAGAGAAGATGATGG
Found at i:11185 original size:29 final size:31
Alignment explanation
Indices: 11135--11197 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
11125 TTATCGTTTT
11135 AAAAATTCAAAAATAAAAATTA-TAT-TATA
1 AAAAATTCAAAAATAAAAATTACTATATATA
**
11164 AAAAATTCAAAAGA-AATTATTACTATATATA
1 AAAAATTCAAAA-ATAAAAATTACTATATATA
11195 AAA
1 AAA
11198 TATATCAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 18 0.62
30 4 0.14
31 7 0.24
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (31 bp):
AAAAATTCAAAAATAAAAATTACTATATATA
Found at i:11237 original size:26 final size:26
Alignment explanation
Indices: 11185--11237 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
11175 AGAAATTATT
** *
11185 ACTATATATAAAATATATCAATTTAA
1 ACTATATATAAAATATAAAAATATAA
11211 ACTATA-ATAAAAATATAAAAATATAA
1 ACTATATAT-AAAATATAAAAATATAA
11237 A
1 A
11238 TAAAAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (26 bp):
ACTATATATAAAATATAAAAATATAA
Found at i:11242 original size:12 final size:13
Alignment explanation
Indices: 11216--11249 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
11206 TTTAAACTAT
*
11216 AATAAAAATATAAA
1 AATATAAATA-AAA
11230 AATATAAATAAAA
1 AATATAAATAAAA
11243 AATATAA
1 AATATAA
11250 TTATAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AATATAAATAAAA
Found at i:11242 original size:19 final size:19
Alignment explanation
Indices: 11213--11265 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
11203 CAATTTAAAC
11213 TATAATAAAAATATAAAAA
1 TATAATAAAAATATAAAAA
* *
11232 TATAAATAAAAA-ATATAAT
1 TAT-AATAAAAATATAAAAA
11251 TATAATAAAAATATA
1 TATAATAAAAATATA
11266 TTTTATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 8 0.27
19 14 0.47
20 8 0.27
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TATAATAAAAATATAAAAA
Found at i:11266 original size:19 final size:19
Alignment explanation
Indices: 11213--11276 Score: 78
Period size: 18 Copynumber: 3.4 Consensus size: 19
11203 CAATTTAAAC
* *
11213 TATAATAAAAATATAAAAA
1 TATAATAAAAATATATAAT
11232 TATAAATAAAAA-ATATAAT
1 TAT-AATAAAAATATATAAT
*
11251 TATAATAAAAATATAT-TT
1 TATAATAAAAATATATAAT
11269 TATAATAA
1 TATAATAA
11277 CTCATTATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
18 17 0.43
19 15 0.38
20 8 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TATAATAAAAATATATAAT
Found at i:12031 original size:2 final size:2
Alignment explanation
Indices: 12024--12059 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
12014 TAAACATTTA
12024 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12060 TATTAGCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12842 original size:54 final size:54
Alignment explanation
Indices: 12807--13128 Score: 434
Period size: 54 Copynumber: 5.9 Consensus size: 54
12797 CTATACGGAA
* * *
12807 ATTCATCAACTCATGATAAATTCTGTGGGTTGCACACATAGTGCTTATACGGTG
1 ATTCATCAACTCATGATGAATTCTGTGGGTTGCACACATAGTGCATGTACGGTG
* *
12861 ATTCATCAACTCATGATGAATTCCGTGGGTTTGCACACATGGTGTC-TGTACGGTG
1 ATTCATCAACTCATGATGAATTCTGTGGG-TTGCACACATAGTG-CATGTACGGTG
*
12916 ATTCATCAACTCATGGTGAATT-TCGTGGGTTGCACACATAGTGCATGTACGGTG
1 ATTCATCAACTCATGATGAATTCT-GTGGGTTGCACACATAGTGCATGTACGGTG
* *
12970 ATTCATCAACTCATGATGAATTCTGTGGGTTGCACATATAGTGCATGTACGGTC
1 ATTCATCAACTCATGATGAATTCTGTGGGTTGCACACATAGTGCATGTACGGTG
* * * *
13024 ATTCATCAACTAATTATGAATT-TCGTGGGTTTGCACACAAAGTGCATGTACGATG
1 ATTCATCAACTCATGATGAATTCT-GTGGG-TTGCACACATAGTGCATGTACGGTG
* * *
13079 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAAGTGCATGTA
1 ATTCATCAACTCATGATGAATTCTGTGG-GTTGCACACATAGTGCATGTA
13129 ATACACATAG
Statistics
Matches: 239, Mismatches: 20, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
53 2 0.01
54 123 0.51
55 113 0.47
56 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (54 bp):
ATTCATCAACTCATGATGAATTCTGTGGGTTGCACACATAGTGCATGTACGGTG
Found at i:12926 original size:109 final size:109
Alignment explanation
Indices: 12807--13128 Score: 470
Period size: 109 Copynumber: 3.0 Consensus size: 109
12797 CTATACGGAA
* * *
12807 ATTCATCAACTCATGAT-AAATTCTGTGGGTTGCACACATAGTGCTTATACGGTGATTCATCAAC
1 ATTCATCAACTCATGATGAATTTC-GTGGGTTGCACACATAGTGCATGTACGGTGATTCATCAAC
* *
12871 TCATGATGAATTCCGTGGGTTTGCACACATGGTGTC-TGTACGGTG
65 TCATGATGAATTCCGTGGGTTTGCACACATAGTG-CATGTACGGTC
*
12916 ATTCATCAACTCATGGTGAATTTCGTGGGTTGCACACATAGTGCATGTACGGTGATTCATCAACT
1 ATTCATCAACTCATGATGAATTTCGTGGGTTGCACACATAGTGCATGTACGGTGATTCATCAACT
* *
12981 CATGATGAATTCTGTGGG-TTGCACATATAGTGCATGTACGGTC
66 CATGATGAATTCCGTGGGTTTGCACACATAGTGCATGTACGGTC
* * * *
13024 ATTCATCAACTAATTATGAATTTCGTGGGTTTGCACACAAAGTGCATGTACGATGATTCATCAAC
1 ATTCATCAACTCATGATGAATTTCGTGGG-TTGCACACATAGTGCATGTACGGTGATTCATCAAC
* *
13089 TCATGATGAATTCCGTGGATTTGCACACAAAGTGCATGTA
65 TCATGATGAATTCCGTGGGTTTGCACACATAGTGCATGTA
13129 ATACACATAG
Statistics
Matches: 192, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
107 1 0.01
108 46 0.24
109 122 0.64
110 23 0.12
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (109 bp):
ATTCATCAACTCATGATGAATTTCGTGGGTTGCACACATAGTGCATGTACGGTGATTCATCAACT
CATGATGAATTCCGTGGGTTTGCACACATAGTGCATGTACGGTC
Found at i:13083 original size:163 final size:164
Alignment explanation
Indices: 12807--13128 Score: 486
Period size: 163 Copynumber: 2.0 Consensus size: 164
12797 CTATACGGAA
* *
12807 ATTCATCAACTCATGATAAATTCTGTGGGTTGCACACATAGTGCTTATACGGTGATTCATCAACT
1 ATTCATCAACTCATGATAAATTCTGTGGGTTGCACACATAGTGCATATACGGTCATTCATCAACT
* ** * *
12872 CATGATGAATTCCGTGGGTTTGCACACATGGTGTCTGTACGGTGATTCATCAACTCATGGTGAAT
66 AATGATGAATTCCGTGGGTTTGCACACAAAGTGTCTGTACGATGATTCATCAACTCATGATGAAT
* *
12937 TTCGTGG-GTTGCACACATAGTGCATGTACGGTG
131 TCCGTGGAGTTGCACACAAAGTGCATGTACGGTG
* * *
12970 ATTCATCAACTCATGATGAATTCTGTGGGTTGCACATATAGTGCATGTACGGTCATTCATCAACT
1 ATTCATCAACTCATGATAAATTCTGTGGGTTGCACACATAGTGCATATACGGTCATTCATCAACT
* *
13035 AATTATGAATTTCGTGGGTTTGCACACAAAGTG-CATGTACGATGATTCATCAACTCATGATGAA
66 AATGATGAATTCCGTGGGTTTGCACACAAAGTGTC-TGTACGATGATTCATCAACTCATGATGAA
*
13099 TTCCGTGGATTTGCACACAAAGTGCATGTA
130 TTCCGTGGAGTTGCACACAAAGTGCATGTA
13129 ATACACATAG
Statistics
Matches: 142, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
162 1 0.01
163 122 0.86
164 19 0.13
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (164 bp):
ATTCATCAACTCATGATAAATTCTGTGGGTTGCACACATAGTGCATATACGGTCATTCATCAACT
AATGATGAATTCCGTGGGTTTGCACACAAAGTGTCTGTACGATGATTCATCAACTCATGATGAAT
TCCGTGGAGTTGCACACAAAGTGCATGTACGGTG
Found at i:13580 original size:20 final size:20
Alignment explanation
Indices: 13555--13623 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 20
13545 TGATGTTGCC
13555 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCTTACCA
* *
13575 TGGTATCGATACTACCCTACTA
1 TGGTATCGATAC--CCTTACCA
*
13597 TGGTACCGATACCCCTT-CCA
1 TGGTATCGATA-CCCTTACCA
13617 -GGTATCG
1 TGGTATCG
13624 GTACAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
19 6 0.15
20 14 0.35
21 3 0.08
22 16 0.40
23 1 0.03
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (20 bp):
TGGTATCGATACCCTTACCA
Found at i:13642 original size:95 final size:95
Alignment explanation
Indices: 13500--13685 Score: 286
Period size: 95 Copynumber: 2.0 Consensus size: 95
13490 ACTTCTTTAT
* * *
13500 TATGGTACTGATACCCCCTTCTGGTATCGATACCAAAAATAGGTTTGATGTTGCCTGGTATCGAT
1 TATGGTACCGATACCCCCTTCAGGTATCGATACCAAAAATAGATTTGATGTTGCCTGGTATCGAT
13565 ACCCTTACCATGGTATCGATACTACCCTAC
66 ACCCTTACCATGGTATCGATACTACCCTAC
* * *
13595 TATGGTACCGATA-CCCCTTCCAGGTATCGGTA-CAAAAATTAGATTTGATGTTTCTTGGTATCG
1 TATGGTACCGATACCCCCTT-CAGGTATCGATACCAAAAA-TAGATTTGATGTTGCCTGGTATCG
13658 ATACCCTTACCATGGTATCGATACTACC
64 ATACCCTTACCATGGTATCGATACTACC
13686 TCGACGGTAT
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
94 12 0.14
95 71 0.86
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (95 bp):
TATGGTACCGATACCCCCTTCAGGTATCGATACCAAAAATAGATTTGATGTTGCCTGGTATCGAT
ACCCTTACCATGGTATCGATACTACCCTAC
Found at i:13718 original size:95 final size:95
Alignment explanation
Indices: 13524--13706 Score: 237
Period size: 95 Copynumber: 1.9 Consensus size: 95
13514 CCCCTTCTGG
*
13524 TATCGATACCAAAAATAGGTTTGATGTTGCCTGGTATCGATACCCTTACCATGGTATCGATACTA
1 TATCGATACCAAAAATAGATTTGATGTTGCCTGGTATCGATACCCTTACCATGGTATCGATACTA
* * ** *
13589 CCCTACTATGGTACCGATACCCCTTCCAGG
66 CCCTACGACGGTACCGATACCAATTCCAGA
* * *
13619 TATCGGTA-CAAAAATTAGATTTGATGTTTCTTGGTATCGATACCCTTACCATGGTATCGATACT
1 TATCGATACCAAAAA-TAGATTTGATGTTGCCTGGTATCGATACCCTTACCATGGTATCGATACT
* *
13683 A-CCT-CGACGGTATCGATACTAATT
65 ACCCTACGACGGTACCGATACCAATT
13707 GAATCAATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
93 14 0.18
94 9 0.12
95 54 0.70
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (95 bp):
TATCGATACCAAAAATAGATTTGATGTTGCCTGGTATCGATACCCTTACCATGGTATCGATACTA
CCCTACGACGGTACCGATACCAATTCCAGA
Found at i:20116 original size:55 final size:54
Alignment explanation
Indices: 19802--20101 Score: 449
Period size: 54 Copynumber: 5.5 Consensus size: 54
19792 CTATACGAAA
* * * *
19802 ATTCATCAACTCATGATAAATTCTGTGAGTTGCACACATAGTGCTTATACGGTG
1 ATTCATCAACTCATGATGAATTCTGTGGGTTGCACACATAGTGCCTGTACGGTG
*
19856 ATTCATCAACTCATGATGAATTAC-GTGGGTTTGCACACATGGTGCCTGTACGGTG
1 ATTCATCAACTCATGATGAATT-CTGTGGG-TTGCACACATAGTGCCTGTACGGTG
* *
19911 ATTCATAAACTCATATGAAGAATTCTGTGGGTTGCACACATAGTGCCTGTACGGTG
1 ATTCATCAACTC--ATGATGAATTCTGTGGGTTGCACACATAGTGCCTGTACGGTG
19967 ATTCATCAACTCATGATGAATTCTGTGGGTTGCACACATAGTGCCTGTACGGTG
1 ATTCATCAACTCATGATGAATTCTGTGGGTTGCACACATAGTGCCTGTACGGTG
* * *
20021 ATTCATCAACTAATGATGAATTCTGTGGGTTTGCACACAAAGTGCCTGTACGATG
1 ATTCATCAACTCATGATGAATTCTGTGGG-TTGCACACATAGTGCCTGTACGGTG
*
20076 ATTCATCAACCCATGATGAATTCTGT
1 ATTCATCAACTCATGATGAATTCTGT
20102 AGATTTGCAC
Statistics
Matches: 225, Mismatches: 15, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
54 94 0.42
55 81 0.36
56 36 0.16
57 14 0.06
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (54 bp):
ATTCATCAACTCATGATGAATTCTGTGGGTTGCACACATAGTGCCTGTACGGTG
Found at i:20571 original size:20 final size:20
Alignment explanation
Indices: 20543--20618 Score: 66
Period size: 22 Copynumber: 3.8 Consensus size: 20
20533 TTCGATGTTG
*
20543 CATGATATCGATACCCTTAC
1 CATGGTATCGATACCCTTAC
*
20563 CATGGTATCGATACTACCCTAC
1 CATGGTATCGATAC--CCTTAC
* *
20585 TATGGTACCGATACCCCTT-C
1 CATGGTATCGATA-CCCTTAC
*
20605 C-CGGTATCGATACC
1 CATGGTATCGATACC
20619 AAAATTAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
18 2 0.04
19 9 0.20
20 14 0.31
21 3 0.07
22 16 0.36
23 1 0.02
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (20 bp):
CATGGTATCGATACCCTTAC
Found at i:20616 original size:95 final size:95
Alignment explanation
Indices: 20465--20666 Score: 307
Period size: 95 Copynumber: 2.1 Consensus size: 95
20455 TCGATACTAC
* * *
20465 TACCCTGGTATCGATACTTCTATACTATGGTACCGATACCCCCTTCCGGTATCGATACCAAAAAT
1 TACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTCCGGTATCGATACCAAAAAT
**
20530 AGGTTCGATGTTGCATGATATCGATACCCT
66 AAATTCGATGTTGCATGATATCGATACCCT
* *
20560 TACCATGGTATCGATACTACCCTACTATGGTACCGATA-CCCCTTCCCGGTATCGATACCAAAAT
1 TACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTT-CCGGTATCGATACCAAAAA
* *
20624 TAAATTCGATGTTTCTTGATATCGATACCCT
65 TAAATTCGATGTTGCATGATATCGATACCCT
20655 TACCATGGTATC
1 TACCATGGTATC
20667 ACTATTACCT
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
94 6 0.06
95 91 0.94
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (95 bp):
TACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTCCGGTATCGATACCAAAAAT
AAATTCGATGTTGCATGATATCGATACCCT
Found at i:45985 original size:7 final size:7
Alignment explanation
Indices: 45969--46002 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
45959 TCATTATTTA
45969 CATT-TT
1 CATTCTT
45975 CATTCTT
1 CATTCTT
45982 CATTCTT
1 CATTCTT
*
45989 TATTCTT
1 CATTCTT
45996 CATTCTT
1 CATTCTT
46003 TACATTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 4 0.16
7 21 0.84
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.62
Consensus pattern (7 bp):
CATTCTT
Found at i:45995 original size:14 final size:14
Alignment explanation
Indices: 45976--46004 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
45966 TTACATTTTC
45976 ATTCTTCATTCTTT
1 ATTCTTCATTCTTT
45990 ATTCTTCATTCTTT
1 ATTCTTCATTCTTT
46004 A
1 A
46005 CATTCATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTCTTCATTCTTT
Found at i:49560 original size:8 final size:8
Alignment explanation
Indices: 49547--49621 Score: 72
Period size: 8 Copynumber: 10.0 Consensus size: 8
49537 AAAGAGAATG
49547 AATGAAAA
1 AATGAAAA
49555 AATGAAAA
1 AATGAAAA
*
49563 AGTGAAAA
1 AATGAAAA
*
49571 AGA-AAAAA
1 A-ATGAAAA
49579 AATGAAAA
1 AATGAAAA
49587 AATGAAAA
1 AATGAAAA
*
49595 AA--AAGA
1 AATGAAAA
49601 AA--AAAA
1 AATGAAAA
49607 AA-GAAAA
1 AATGAAAA
49614 AATGAAAA
1 AATGAAAA
49622 GAAAAAAGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
6 10 0.18
7 7 0.12
8 40 0.70
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (8 bp):
AATGAAAA
Found at i:49560 original size:27 final size:27
Alignment explanation
Indices: 49530--49634 Score: 104
Period size: 27 Copynumber: 3.7 Consensus size: 27
49520 GTACTATGCT
* **
49530 TGAAAAAAAAGAGAATGAATGAAAAAA
1 TGAAAAAAAAGAAAAAAAATGAAAAAA
49557 TGAAAAAGTGAAAAAGAAAAAAAATGAAAAAA
1 TG--AAA---AAAAAGAAAAAAAATGAAAAAA
*
49589 TGAAAAAAAAGAAAAAAAAAGAAAAAA
1 TGAAAAAAAAGAAAAAAAATGAAAAAA
*
49616 TGAAAAGAAAA-AAGAAAAA
1 TGAAAA-AAAAGAAAAAAAA
49635 GGAGGGTTTG
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
27 36 0.54
28 4 0.06
29 3 0.04
30 3 0.04
32 21 0.31
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (27 bp):
TGAAAAAAAAGAAAAAAAATGAAAAAA
Found at i:49573 original size:32 final size:32
Alignment explanation
Indices: 49547--49634 Score: 109
Period size: 27 Copynumber: 3.0 Consensus size: 32
49537 AAAGAGAATG
49547 AATGAAAAAATGAAAAAGTGAAAAAGAAAAAA
1 AATGAAAAAATGAAAAAGTGAAAAAGAAAAAA
49579 AATGAAAAAATG--AAA---AAAAAGAAAAAA
1 AATGAAAAAATGAAAAAGTGAAAAAGAAAAAA
* *
49606 AAAGAAAAAATG-AAAAG-AAAAAAGAAAAA
1 AATGAAAAAATGAAAAAGTGAAAAAGAAAAA
49635 GGAGGGTTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
27 23 0.44
28 3 0.06
30 14 0.27
32 12 0.23
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (32 bp):
AATGAAAAAATGAAAAAGTGAAAAAGAAAAAA
Found at i:49585 original size:10 final size:9
Alignment explanation
Indices: 49567--49634 Score: 68
Period size: 9 Copynumber: 7.2 Consensus size: 9
49557 TGAAAAAGTG
49567 AAAAAGAAA
1 AAAAAGAAA
49576 AAAAATG-AA
1 AAAAA-GAAA
*
49585 AAAATGAAA
1 AAAAAGAAA
49594 AAAAAGAAAA
1 AAAAAG-AAA
49604 AAAAAGAAA
1 AAAAAGAAA
49613 AAATGAA-AAGA
1 AAA--AAGAA-A
49624 AAAAAGAAA
1 AAAAAGAAA
49633 AA
1 AA
49635 GGAGGGTTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
8 1 0.02
9 29 0.58
10 14 0.28
11 6 0.12
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:49588 original size:18 final size:17
Alignment explanation
Indices: 49567--49634 Score: 75
Period size: 17 Copynumber: 3.8 Consensus size: 17
49557 TGAAAAAGTG
*
49567 AAAAAGAAAAAAAATGA
1 AAAAAAAAAAAAAATGA
*
49584 AAAAATGAAAAAAAA-GA
1 AAAAA-AAAAAAAAATGA
49601 AAAAAAAAGAAAAAATGA
1 AAAAAAAA-AAAAAATGA
49619 AAAGAAAAAAGAAAAA
1 AAA-AAAAAA-AAAAA
49635 GGAGGGTTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
16 2 0.04
17 18 0.40
18 15 0.33
19 10 0.22
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAAAAAATGA
Found at i:49634 original size:8 final size:8
Alignment explanation
Indices: 49550--49634 Score: 52
Period size: 8 Copynumber: 10.8 Consensus size: 8
49540 GAGAATGAAT
*
49550 GAAAAAAT
1 GAAAAAAA
**
49558 GAAAAAGT
1 GAAAAAAA
49566 GAAAAAGAA
1 GAAAAA-AA
*
49575 -AAAAAAT
1 GAAAAAAA
*
49582 GAAAAAAT
1 GAAAAAAA
49590 GAAAAAAAA
1 G-AAAAAAA
49599 GAAAAAAA
1 GAAAAAAA
49607 -AAGAAAAA
1 GAA-AAAAA
**
49615 -ATGAAAA
1 GAAAAAAA
49622 G-AAAAAA
1 GAAAAAAA
49629 GAAAAA
1 GAAAAA
49635 GGAGGGTTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
7 12 0.19
8 43 0.69
9 7 0.11
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (8 bp):
GAAAAAAA
Found at i:50725 original size:105 final size:105
Alignment explanation
Indices: 50543--51338 Score: 1351
Period size: 105 Copynumber: 7.6 Consensus size: 105
50533 TCAACAACAA
** *
50543 TCAAATCCACCATAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
*
50608 CCTAAAGGAGAAGGCTCGTAATGAGAAGAGCCTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
* * *
50648 TCAAATCCACCACAGAAGGAGGTGACCCAACATTTACAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
50713 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
* * * *
50753 TCAAATCCACCGCAGAATGAGGTAAACCAATA-TTCTAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
*
50817 CCTAAAGGAGAAGGTTTGTAATGAGAAGAGCCTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
50857 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
*
50922 CATAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
50962 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
*
51027 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
*
51067 TCAAATCCACCGCAGAAGGAGGTGAACCAATATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
* **
51132 CTTAAAGGAGAAGGTTCGTAATGAGAAGAGTATGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
*
51172 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCAT
1 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
** *
51237 ATTAAAGGAGAAGGTTCGTAATGAGAAGAGCTTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
* * * *
51277 TCAAATTCACCCCAGAAGGAGGTGAATCGACATTTCCAGAAGAGTTCATAATGAGAAGAACT
1 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACT
51339 TGTTCAACCT
Statistics
Matches: 659, Mismatches: 31, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
104 98 0.15
105 561 0.85
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (105 bp):
TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
Found at i:53244 original size:37 final size:37
Alignment explanation
Indices: 53201--53275 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
53191 AAATATGTAT
53201 ATATTTATAAAGAAATATAAAGTTAAAAATAAATTTA
1 ATATTTATAAAGAAATATAAAGTTAAAAATAAATTTA
*
53238 ATATTTATAAAGCAATATAAAGTTAAAAATAAATTTA
1 ATATTTATAAAGAAATATAAAGTTAAAAATAAATTTA
53275 A
1 A
53276 AATGACTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (37 bp):
ATATTTATAAAGAAATATAAAGTTAAAAATAAATTTA
Found at i:56459 original size:31 final size:30
Alignment explanation
Indices: 56419--56476 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
56409 AAATGACTAC
56419 ATATATTATACATAATACACTTAAATTCTTA
1 ATATATTATACATAATA-ACTTAAATTCTTA
* * * *
56450 ATATTTTATATATCATAATTTAAATTC
1 ATATATTATACATAATAACTTAAATTC
56477 ACGTATTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 9 0.39
31 14 0.61
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (30 bp):
ATATATTATACATAATAACTTAAATTCTTA
Found at i:56642 original size:29 final size:29
Alignment explanation
Indices: 56509--56653 Score: 163
Period size: 29 Copynumber: 5.1 Consensus size: 29
56499 CTTAACATCA
* *
56509 AAAAAAATATTTT-TT-TTATCTTAACTT
1 AAAAATATATTTTATTCTTATTTTAACTT
* * * *
56536 ATTAAATATATTTTATTCTTTTTTTAGCCT
1 A-AAAATATATTTTATTCTTATTTTAACTT
56566 AAAAATATATTTTATTCTT-TTTTAA-TCT
1 AAAAATATATTTTATTCTTATTTTAACT-T
56594 AAAAATATATTTTATTCTTATTTTAACTT
1 AAAAATATATTTTATTCTTATTTTAACTT
* * *
56623 AAAAATATATTTTAATCTTATCTTATCTT
1 AAAAATATATTTTATTCTTATTTTAACTT
56652 AA
1 AA
56654 CTTAAAAATA
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
27 1 0.01
28 35 0.35
29 54 0.54
30 10 0.10
ACGTcount: A:0.37, C:0.08, G:0.01, T:0.54
Consensus pattern (29 bp):
AAAAATATATTTTATTCTTATTTTAACTT
Found at i:56817 original size:54 final size:53
Alignment explanation
Indices: 56738--56879 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 53
56728 AATTAAGATA
* *
56738 AAAATATAATATATATTTTTAGTTAAGATAAAAGTAAAATATATATTTTTAGTT
1 AAAATA-AAAATATATTTTTAGTTAAGATAAAAATAAAATATATATTTTTAGTT
56792 AAAATAAAAATATATTTTTGAGTTAAGATAAAAATAAAATATATATTTTTAGTT
1 AAAATAAAAATATATTTTT-AGTTAAGATAAAAATAAAATATATATTTTTAGTT
*
56846 AAAATAAAAATATATTTTTAGTTAAAATAAAAAT
1 AAAATAAAAATATATTTTTAGTTAAGATAAAAAT
56880 CTATTTTTGA
Statistics
Matches: 84, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
53 26 0.31
54 58 0.69
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (53 bp):
AAAATAAAAATATATTTTTAGTTAAGATAAAAATAAAATATATATTTTTAGTT
Found at i:56859 original size:77 final size:77
Alignment explanation
Indices: 56730--56935 Score: 304
Period size: 77 Copynumber: 2.6 Consensus size: 77
56720 TATTTTAAAA
*
56730 TTAAGATAAAAATATAATATATATTTTTAGTTAAGATAAAAGTAAAATATATATTTTTAGTTAAA
1 TTAAGATAAAAATAAAATATATATTTTTAG-T----TAAAA-TAAAA-ATATATTTTTAGTTAAA
56795 ATAAAAATATATTTTTGAG
59 ATAAAAATATATTTTTGAG
56814 TTAAGATAAAAATAAAATATATATTTTTAGTTAAAATAAAAATATATTTTTAGTTAAAATAAAAA
1 TTAAGATAAAAATAAAATATATATTTTTAGTTAAAATAAAAATATATTTTTAGTTAAAATAAAAA
*
56879 TCTATTTTTGAG
66 TATATTTTTGAG
* *
56891 TTAAGATAAAAATAAAATATATAATTTTAAGTTAAAATAAGAATA
1 TTAAGATAAAAATAAAATATAT-ATTTTTAGTTAAAATAAAAATA
56936 AATTATATTT
Statistics
Matches: 117, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
77 57 0.49
78 25 0.21
79 5 0.04
83 1 0.01
84 29 0.25
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (77 bp):
TTAAGATAAAAATAAAATATATATTTTTAGTTAAAATAAAAATATATTTTTAGTTAAAATAAAAA
TATATTTTTGAG
Found at i:56902 original size:24 final size:23
Alignment explanation
Indices: 56766--56904 Score: 161
Period size: 23 Copynumber: 5.6 Consensus size: 23
56756 TTAGTTAAGA
56766 TAAAAGTAAAATATATATTTTTAGT
1 TAAAA-TAAAA-ATATATTTTTAGT
56791 TAAAATAAAAATATATTTTTGAGTT
1 TAAAATAAAAATATATTTTT-AG-T
56816 AAGATAAAAATAAAATATATATTTTTAGT
1 ----T-AAAATAAAA-ATATATTTTTAGT
56845 TAAAATAAAAATATATTTTTAGT
1 TAAAATAAAAATATATTTTTAGT
*
56868 TAAAATAAAAATCTATTTTTGAGT
1 TAAAATAAAAATATATTTTT-AGT
*
56892 TAAGATAAAAATA
1 TAAAATAAAAATA
56905 AAATATATAA
Statistics
Matches: 102, Mismatches: 3, Indels: 19
0.82 0.02 0.15
Matches are distributed among these distances:
23 42 0.41
24 30 0.29
25 7 0.07
29 2 0.02
30 11 0.11
31 10 0.10
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.40
Consensus pattern (23 bp):
TAAAATAAAAATATATTTTTAGT
Found at i:57072 original size:30 final size:30
Alignment explanation
Indices: 56719--57153 Score: 196
Period size: 30 Copynumber: 15.2 Consensus size: 30
56709 TATTATGATA
* *
56719 ATATTTTAAAATTAAGATAAA-AATATAATAT
1 ATATTTTTAAGTTAAGATAAAGAATA-AA-AT
*
56750 ATATTTTT-AGTTAAGATAAA-AGTAAAAT
1 ATATTTTTAAGTTAAGATAAAGAATAAAAT
* *
56778 ATATATTT---TT-AG-TTAA-AATAAAAAT
1 ATATTTTTAAGTTAAGATAAAGAAT-AAAAT
*
56803 ATATTTTTGAGTTAAGATAAA-AATAAAAT
1 ATATTTTTAAGTTAAGATAAAGAATAAAAT
* *
56832 ATATATTT---TT-AG-TTAA-AATAAAAAT
1 ATATTTTTAAGTTAAGATAAAGAAT-AAAAT
*
56857 ATATTTTT-AGTT---A-AAA-TA-AAAAT
1 ATATTTTTAAGTTAAGATAAAGAATAAAAT
* *
56880 CTATTTTTGAGTTAAGATAAA-AATAAAAT
1 ATATTTTTAAGTTAAGATAAAGAATAAAAT
* *
56909 ATATAATTTTAAGTTAAAAT-AAGAATAAATT
1 ATAT--TTTTAAGTTAAGATAAAGAATAAAAT
* * * **
56940 ATATTTAATAATTTAAGGT-AAGAATATGAT
1 ATATTT-TTAAGTTAAGATAAAGAATAAAAT
* * * * * * *
56970 ATATTTCATAATTTAA-TTTAGGAACATAAT
1 ATATTT-TTAAGTTAAGATAAAGAATAAAAT
* ** * *
57000 TTATGTAATAAATTAATAT-AAGAATAAAAT
1 ATAT-TTTTAAGTTAAGATAAAGAATAAAAT
* *
57030 ATATTCTTTAAGTTAAGATAAAGAGTAAAAC
1 ATATT-TTTAAGTTAAGATAAAGAATAAAAT
* *
57061 ATATTTTTAAGTTAAAAT-GAGAATAAAAT
1 ATATTTTTAAGTTAAGATAAAGAATAAAAT
* *
57090 ATATTTTT-AGATTAAGACAATG-ATAAAAT
1 ATATTTTTAAG-TTAAGATAAAGAATAAAAT
* *
57119 ATATTTAATAAGTTAATATAAA-AATAAAAT
1 ATATTT-TTAAGTTAAGATAAAGAATAAAAT
57149 ATATT
1 ATATT
57154 CGTAATGTTA
Statistics
Matches: 317, Mismatches: 57, Indels: 61
0.73 0.13 0.14
Matches are distributed among these distances:
23 12 0.04
24 15 0.05
25 31 0.10
26 4 0.01
27 3 0.01
28 17 0.05
29 62 0.20
30 125 0.39
31 48 0.15
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.39
Consensus pattern (30 bp):
ATATTTTTAAGTTAAGATAAAGAATAAAAT
Found at i:57145 original size:59 final size:61
Alignment explanation
Indices: 57005--57154 Score: 191
Period size: 59 Copynumber: 2.5 Consensus size: 61
56995 ATAATTTATG
* *
57005 TAATAAATTAATATAAGAATAAAATATATTCTTTAAGTTAAGATAAAGAGTAAAACATATT
1 TAATAAGTTAATATAAGAATAAAATATATTCTTTAAGTTAAGACAAAGAGTAAAACATATT
* * * * *
57066 T-TTAAGTTAAAATGAGAATAAAATATATT-TTT-AGATTAAGACAATGA-TAAAATATATT
1 TAATAAGTTAATATAAGAATAAAATATATTCTTTAAG-TTAAGACAAAGAGTAAAACATATT
*
57124 TAATAAGTTAATATAAAAATAAAATATATTC
1 TAATAAGTTAATATAAGAATAAAATATATTC
57155 GTAATGTTAG
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
58 13 0.17
59 37 0.49
60 24 0.32
61 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (61 bp):
TAATAAGTTAATATAAGAATAAAATATATTCTTTAAGTTAAGACAAAGAGTAAAACATATT
Found at i:59995 original size:31 final size:31
Alignment explanation
Indices: 59957--60015 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
59947 TGAAAGTACC
59957 AAACAGCTAGTAAAAGAGTAGAGTTAATACA
1 AAACAGCTAGTAAAAGAGTAGAGTTAATACA
*
59988 AAACAGCTAGTGAAAGAGTAGAGTTAAT
1 AAACAGCTAGTAAAAGAGTAGAGTTAAT
60016 CTTACCTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.22, T:0.20
Consensus pattern (31 bp):
AAACAGCTAGTAAAAGAGTAGAGTTAATACA
Found at i:62970 original size:43 final size:43
Alignment explanation
Indices: 62915--63191 Score: 230
Period size: 43 Copynumber: 6.4 Consensus size: 43
62905 TTTCAAGAAA
62915 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGATAGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGATAGAC
* *
62958 AAACGCCACAATAGATGTTGATATTTAGCGGCGTTTGGA-AGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-GATAGAC
* *
63001 AAACGCCGCAATAGCTGTTGATATTTAGCGGCATTTGGA-AGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-GATAGAC
* * * **
63044 AAACGCCACAGTAGGT-TTCGAT-TTATAGCAGCGTTTTTCTCAG--
1 AAACGCCGCAATAGGTGTT-GATATT-TAGCGGCG-TTTGAT-AGAC
* * * * *
63087 AAACGCCGCAGTAGGTGTTGATTTTTAGTGGCGTTT-TTATCAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGATA-GAC
* * ** *
63130 AAACGCCGCAATAAGTGTTAAGGTTTAGCGGCGTTT-TTAG-C
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGATAGAC
*
63171 TTAAACGCCGCAATATGTGTT
1 --AAACGCCGCAATAGGTGTT
63192 TGATTTGGCG
Statistics
Matches: 196, Mismatches: 25, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
40 1 0.01
41 2 0.01
42 7 0.04
43 175 0.89
44 9 0.05
45 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGATAGAC
Found at i:63219 original size:42 final size:44
Alignment explanation
Indices: 63128--63223 Score: 108
Period size: 42 Copynumber: 2.2 Consensus size: 44
63118 CGTTTTTATC
* * *
63128 ACAAACGCCGCAATAAGTGTTAAGGTTTAGCGGCGTTTTTAGCT
1 ACAAACGCCGCAATAAGTGTTAAGATTTAGCGGCGTCTTTAGAT
* * * *
63172 -TAAACGCCGCAATATGTGTT-TGATTTGGCGGCGTCTTTA-AT
1 ACAAACGCCGCAATAAGTGTTAAGATTTAGCGGCGTCTTTAGAT
63213 ACAAACGCCGC
1 ACAAACGCCGC
63224 TAAAGATCGG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 24 0.56
43 18 0.42
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (44 bp):
ACAAACGCCGCAATAAGTGTTAAGATTTAGCGGCGTCTTTAGAT
Found at i:63658 original size:21 final size:21
Alignment explanation
Indices: 63591--63647 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
63581 ATATGTTGCT
63591 TCTCTTTGTGCTGCCGCTGCC
1 TCTCTTTGTGCTGCCGCTGCC
63612 TCTCTTTGTGCTGCCGCTGCC
1 TCTCTTTGTGCTGCCGCTGCC
63633 TCTCTTTGTGCTGCC
1 TCTCTTTGTGCTGCC
63648 ACTGTTTCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.00, C:0.37, G:0.23, T:0.40
Consensus pattern (21 bp):
TCTCTTTGTGCTGCCGCTGCC
Found at i:63658 original size:42 final size:42
Alignment explanation
Indices: 63591--63673 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
63581 ATATGTTGCT
* * *
63591 TCTCTTTGTGCTGCCGCTGCCTCTCTTTGTGCTGCCGCTGCC
1 TCTCTTTGTGCTGCCACTGCCTCTCTCTCTGCTGCCGCTGCC
** *
63633 TCTCTTTGTGCTGCCACTGTTTCTCTCTCTGCTTCCGCTGC
1 TCTCTTTGTGCTGCCACTGCCTCTCTCTCTGCTGCCGCTGC
63674 TGCTCTGGCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.01, C:0.37, G:0.20, T:0.41
Consensus pattern (42 bp):
TCTCTTTGTGCTGCCACTGCCTCTCTCTCTGCTGCCGCTGCC
Found at i:63716 original size:21 final size:21
Alignment explanation
Indices: 63655--63710 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
63645 GCCACTGTTT
63655 CTCTCTCTGCTTCCGCTGCTG
1 CTCTCTCTGCTTCCGCTGCTG
**
63676 CTCTGGCTGCTTCCGCTGCTG
1 CTCTCTCTGCTTCCGCTGCTG
63697 CTCTCTCTGCTTCC
1 CTCTCTCTGCTTCC
63711 CTTGCTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.00, C:0.43, G:0.20, T:0.38
Consensus pattern (21 bp):
CTCTCTCTGCTTCCGCTGCTG
Found at i:70146 original size:40 final size:40
Alignment explanation
Indices: 70027--70336 Score: 344
Period size: 40 Copynumber: 7.8 Consensus size: 40
70017 ACATAATTCC
* * *
70027 ATATGAAAAATCAGGTTGCAACCTAAAAAGAAA-TCAAGTTACA
1 ATATGATAAATCAGGTTGCAACCT----AGAAATTCAAGTTTCT
* * * *
70070 ATGTGATAAATTAGGTTGCAA-CTA-AAAATCAGGTTTCT
1 ATATGATAAATCAGGTTGCAACCTAGAAATTCAAGTTTCT
* * ** ** *
70108 ACATGATCAATCAGACTGCAACCTA-AAAGTTCGGGTTTCC
1 ATATGATAAATCAGGTTGCAACCTAGAAA-TTCAAGTTTCT
*
70148 ATATGATAAATCAGGTTGCAACCTAGAAATTCAAGTTTTT
1 ATATGATAAATCAGGTTGCAACCTAGAAATTCAAGTTTCT
*
70188 ATATGATAAATCAGGTTGCGACCTAGAAATTCAAGTTTCT
1 ATATGATAAATCAGGTTGCAACCTAGAAATTCAAGTTTCT
70228 ATATGATAAATCAGGTTGCAACCTA-AAATTTCAAGTTT-T
1 ATATGATAAATCAGGTTGCAACCTAGAAA-TTCAAGTTTCT
* *
70267 ATATGATAAATCAGGTTGTAACCTAGAAATTCAGGTTTCT
1 ATATGATAAATCAGGTTGCAACCTAGAAATTCAAGTTTCT
* *
70307 ATATGATAAATTAGGTTGCAACCTAAAAAT
1 ATATGATAAATCAGGTTGCAACCTAGAAAT
70337 ATGTTTCTTA
Statistics
Matches: 229, Mismatches: 31, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
37 3 0.01
38 23 0.10
39 42 0.18
40 138 0.60
41 3 0.01
42 2 0.01
43 18 0.08
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (40 bp):
ATATGATAAATCAGGTTGCAACCTAGAAATTCAAGTTTCT
Found at i:70212 original size:80 final size:79
Alignment explanation
Indices: 70027--70334 Score: 354
Period size: 79 Copynumber: 3.9 Consensus size: 79
70017 ACATAATTCC
* * * * * *
70027 ATATGAAAAATCAGGTTGCAACCTAAAAAGAAA-TCAAGTTACAATGTGATAAATTAGGTTGCAA
1 ATATGATAAATCAGGTTGCAACCT----AGAAATTCAGGTTTCTATATGATAAATCAGGTTGCAA
* * *
70091 -CTAAAAATCAGGTTTCT
62 CCTAAAATTCAAGTTTTT
* * ** * *
70108 ACATGATCAATCAGACTGCAACCTA-AAAGTTCGGGTTTCCATATGATAAATCAGGTTGCAACCT
1 ATATGATAAATCAGGTTGCAACCTAGAAA-TTCAGGTTTCTATATGATAAATCAGGTTGCAACCT
70172 AGAAATTCAAGTTTTT
65 A-AAATTCAAGTTTTT
* *
70188 ATATGATAAATCAGGTTGCGACCTAGAAATTCAAGTTTCTATATGATAAATCAGGTTGCAACCTA
1 ATATGATAAATCAGGTTGCAACCTAGAAATTCAGGTTTCTATATGATAAATCAGGTTGCAACCTA
70253 AAATTTCAAG-TTTT
66 AAA-TTCAAGTTTTT
* *
70267 ATATGATAAATCAGGTTGTAACCTAGAAATTCAGGTTTCTATATGATAAATTAGGTTGCAACCTA
1 ATATGATAAATCAGGTTGCAACCTAGAAATTCAGGTTTCTATATGATAAATCAGGTTGCAACCTA
70332 AAA
66 AAA
70335 ATATGTTTCT
Statistics
Matches: 195, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
76 3 0.02
77 1 0.01
78 25 0.13
79 74 0.38
80 70 0.36
81 22 0.11
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (79 bp):
ATATGATAAATCAGGTTGCAACCTAGAAATTCAGGTTTCTATATGATAAATCAGGTTGCAACCTA
AAATTCAAGTTTTT
Found at i:71702 original size:60 final size:59
Alignment explanation
Indices: 71635--71759 Score: 187
Period size: 60 Copynumber: 2.1 Consensus size: 59
71625 CACATACGAA
* * * *
71635 TTTTATCTTGGCGTACCAAGTAACATAGTTGAGCCTTAGCTCTTTATCATTCACATGGT
1 TTTTATCTTGGCGTACCAAGTAACATAGTTGAGCATTAACTCCTTATCATTCACATAGT
* *
71694 TTCTTATCTTGGCTTACCTAGTAACATAGTTGAGCATTAACTCCTTATCATTCACATAGT
1 TT-TTATCTTGGCGTACCAAGTAACATAGTTGAGCATTAACTCCTTATCATTCACATAGT
71754 TTTTAT
1 TTTTAT
71760 TCATGGATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 6 0.10
60 53 0.90
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.42
Consensus pattern (59 bp):
TTTTATCTTGGCGTACCAAGTAACATAGTTGAGCATTAACTCCTTATCATTCACATAGT
Found at i:73571 original size:57 final size:57
Alignment explanation
Indices: 73352--73539 Score: 367
Period size: 57 Copynumber: 3.3 Consensus size: 57
73342 ATTAAAACAG
73352 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
73409 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
*
73466 AAGTACTTATGCATAAAACTACTTAAAAACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
73523 AAGTACTTATGCATAAA
1 AAGTACTTATGCATAAA
73540 CAGTCTTCAC
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 130 1.00
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (57 bp):
AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
Found at i:74510 original size:41 final size:40
Alignment explanation
Indices: 74465--74572 Score: 105
Period size: 41 Copynumber: 2.6 Consensus size: 40
74455 TCACATATTT
* *
74465 TTGCGGCGTTTATACAATAAGCGTCGCTATAT-TAC-ACTATA
1 TTGCGGCGTTT-TACAATAA-CGCCGCTAAATGT-CTACTATA
74506 TTGCGGCGTTTTTAGCTAA-AACGCCGCTAAATGTCTACTATA
1 TTGCGGCG-TTTTA-C-AATAACGCCGCTAAATGTCTACTATA
*
74548 TTGCGGCGTTTTACTATAAACGCCG
1 TTGCGGCGTTTTACAAT-AACGCCG
74573 TTATTGTTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
39 1 0.02
40 1 0.02
41 32 0.56
42 21 0.37
43 2 0.04
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (40 bp):
TTGCGGCGTTTTACAATAACGCCGCTAAATGTCTACTATA
Found at i:75996 original size:64 final size:65
Alignment explanation
Indices: 75845--76006 Score: 202
Period size: 64 Copynumber: 2.5 Consensus size: 65
75835 ATTGTTTAAG
* * *** *
75845 ATGCATCGATGCACATGCAGTGCATCGATGCATGAGTTTTAAATAGAAAACATCGAATAGGATTT
1 ATGCATCGATGCACAAGCAGTGCATCGATGCATCACCATTAAATAGAAAACATCGAATAGCATTT
* * *
75910 ATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-AAAACATCGAAT-GCATTT
1 ATGCATCGATGCACAAGCAGTGCATCGATGCATCACCATTAAATAGAAAACATCGAATAGCA-TT
75973 T
65 T
* *
75974 ATGCACCGATGCACAAGTAGTGCATCGATGCAT
1 ATGCATCGATGCACAAGCAGTGCATCGATGCAT
76007 ACATTCATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
63 2 0.02
64 45 0.54
65 37 0.44
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (65 bp):
ATGCATCGATGCACAAGCAGTGCATCGATGCATCACCATTAAATAGAAAACATCGAATAGCATTT
Found at i:76720 original size:30 final size:30
Alignment explanation
Indices: 76684--76747 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
76674 AAGGAACATA
* *
76684 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
76714 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
76744 TGGA
1 TGGA
76748 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:83742 original size:2 final size:2
Alignment explanation
Indices: 83737--83785 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
83727 ATATTTTTAC
83737 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83779 AT AT AT A
1 AT AT AT A
83786 GTTTGCAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:83842 original size:37 final size:36
Alignment explanation
Indices: 83800--84101 Score: 344
Period size: 37 Copynumber: 8.1 Consensus size: 36
83790 GCAAATGGGT
83800 TTTTGAAAATACGTATATAATATATAGTTTTTAAAACA
1 TTTTGAAAATA--TATATAATATATAGTTTTTAAAACA
83838 -TTTG-AAATATATATAATATATAGTTTTTAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACA
*
83872 TTTTTGAAAA-CTATATAATATATAGTTTTTAAAACA
1 -TTTTGAAAATATATATAATATATAGTTTTTAAAACA
*
83908 TTTTAGAAAATATATATAATATATAGTTATTAAAATCA
1 TTTT-GAAAATATATATAATATATAGTTTTTAAAA-CA
* * *
83946 TTTTGAAACCT-TATATAATATATAGTTTTGAAAATA
1 TTTTGAAA-ATATATATAATATATAGTTTTTAAAACA
* * *
83982 TTTTTAAAACATTTATATATTATATAGTTTTTAAAAACA
1 -TTTTGAAA-ATATATATAATATATAGTTTTT-AAAACA
*
84021 TTTTGAAAATGTATATAATATATAGATTTTT-AAACA
1 TTTTGAAAATATATATAATATATAG-TTTTTAAAACA
*
84057 TTTTTGAAAAAAATATATATATTATATAGTTTTCTAAAACA
1 -TTTTG---AAAATATATATAATATATAGTTTT-TAAAACA
84098 TTTT
1 TTTT
84102 ATAAAACATT
Statistics
Matches: 230, Mismatches: 17, Indels: 32
0.82 0.06 0.11
Matches are distributed among these distances:
34 25 0.11
35 4 0.02
36 45 0.20
37 83 0.36
38 36 0.16
39 9 0.04
40 23 0.10
41 5 0.02
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATAGTTTTTAAAACA
Found at i:84023 original size:75 final size:71
Alignment explanation
Indices: 83813--84101 Score: 343
Period size: 75 Copynumber: 3.9 Consensus size: 71
83803 TGAAAATACG
*
83813 TATATAATATATAGTTTTTAAAACA-TTT-GAAATATATATAATATATAGTTTTTAAAACATTTT
1 TATATAATATATAGTTTTTAAAACATTTTAAAAATATATATAATATATAGTTTTTAAAACA-TTT
83876 TGAAAAC-
65 TG-AAACT
*
83883 TATATAATATATAGTTTTTAAAACATTTTAGAAAATATATATAATATATAGTTATTAAAATCATT
1 TATATAATATATAGTTTTTAAAACATTTTA-AAAATATATATAATATATAGTTTTTAAAA-CATT
83948 TTGAAACCT
64 TTGAAA-CT
* * * *
83957 TATATAATATATAGTTTTGAAAATATTTTTAAAACATTTATATATTATATAGTTTTTAAAAACAT
1 TATATAATATATAGTTTTTAAAACA-TTTTAAAA-ATATATATAATATATAGTTTTT-AAAACAT
*
84022 TTTGAAAAT
63 TTTGAAACT
*
84031 GTATATAATATATAGATTTTT-AAACATTTTTGAAAAAAATATATATATTATATAGTTTTCTAAA
1 -TATATAATATATAG-TTTTTAAAACA-TTTT---AAAAATATATATAATATATAGTTTT-TAAA
84095 ACATTTT
59 ACATTTT
84102 ATAAAACATT
Statistics
Matches: 193, Mismatches: 11, Indels: 23
0.85 0.05 0.10
Matches are distributed among these distances:
70 25 0.13
71 3 0.02
72 3 0.02
73 33 0.17
74 29 0.15
75 57 0.30
76 8 0.04
77 30 0.16
78 5 0.03
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (71 bp):
TATATAATATATAGTTTTTAAAACATTTTAAAAATATATATAATATATAGTTTTTAAAACATTTT
GAAACT
Found at i:84216 original size:10 final size:10
Alignment explanation
Indices: 84165--84216 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
84155 TAGTATATTG
*
84165 TTATTATTTA
1 TTATTATTTT
84175 TTATTATTATT
1 TTATTATT-TT
*
84186 ATTTTTATTTAT
1 -TTATTATTT-T
*
84198 TTCTTATTTT
1 TTATTATTTT
84208 TTATTATTT
1 TTATTATTT
84217 GTTTGTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 17 0.49
11 10 0.29
12 8 0.23
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (10 bp):
TTATTATTTT
Found at i:86302 original size:46 final size:47
Alignment explanation
Indices: 86235--86323 Score: 171
Period size: 46 Copynumber: 1.9 Consensus size: 47
86225 AAATGTATCA
86235 TCTCGAGTTTAACTTAGTCCACATAAGCTTGTAAT-GGGCTTAATCC
1 TCTCGAGTTTAACTTAGTCCACATAAGCTTGTAATGGGGCTTAATCC
86281 TCTCGAGTTTAACTTAGTCCACATAAGCTTGTAATGGGGCTTA
1 TCTCGAGTTTAACTTAGTCCACATAAGCTTGTAATGGGGCTTA
86324 GGACTAAGGG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 35 0.83
47 7 0.17
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (47 bp):
TCTCGAGTTTAACTTAGTCCACATAAGCTTGTAATGGGGCTTAATCC
Found at i:89776 original size:67 final size:67
Alignment explanation
Indices: 89668--89798 Score: 181
Period size: 67 Copynumber: 2.0 Consensus size: 67
89658 CCTTAGGTCC
* * * ** * *
89668 ATAAGGGATTACCAATCGGTGTTGAACCTATTTAATGAATTACCAACAGCGACTGAACTTGCCAA
1 ATAAGGAATTACCAATCGATGCTGAACCTATACAAGGAATTACCAACAGCGACTGAACCTGCCAA
89733 AG
66 AG
* *
89735 ATAAGGAATTACCAGTCGATGCTGAACCTATACAAGGAATTACCAGCAGCGACTGAACCTGCCA
1 ATAAGGAATTACCAATCGATGCTGAACCTATACAAGGAATTACCAACAGCGACTGAACCTGCCA
89799 GAGTCTTCAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (67 bp):
ATAAGGAATTACCAATCGATGCTGAACCTATACAAGGAATTACCAACAGCGACTGAACCTGCCAA
AG
Found at i:93749 original size:29 final size:29
Alignment explanation
Indices: 93716--93775 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
93706 TTTCTTCCCT
93716 GTGGGTTGCTATCCTCCATAGCTCTAAAG
1 GTGGGTTGCTATCCTCCATAGCTCTAAAG
93745 GTGGGTTGCTATCCTCCATAGCTCTAAAG
1 GTGGGTTGCTATCCTCCATAGCTCTAAAG
93774 GT
1 GT
93776 AAGTTTCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (29 bp):
GTGGGTTGCTATCCTCCATAGCTCTAAAG
Found at i:94367 original size:20 final size:21
Alignment explanation
Indices: 94314--94372 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
94304 TACCCAAGCA
94314 ATGA-GGTATCGATACCATAG
1 ATGAGGGTATCGATACCATAG
* *
94334 CTTAGGGATATCGATACCAT-G
1 ATGAGGG-TATCGATACCATAG
94355 ATGAGGGTATCGATACCA
1 ATGAGGGTATCGATACCA
94373 GGTTACTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 13 0.39
21 8 0.24
22 12 0.36
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (21 bp):
ATGAGGGTATCGATACCATAG
Found at i:94439 original size:22 final size:22
Alignment explanation
Indices: 94409--94471 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
94399 TGATACATGA
* *
94409 AGGGAGTATCGATACCCTAA-T
1 AGGGAGTATCGATACCATAAGC
94430 AGGGTAGTATCGATACCATAAGC
1 AGGG-AGTATCGATACCATAAGC
94453 AGGG-GTATCGATACC-TAAG
1 AGGGAGTATCGATACCATAAG
94472 GGCTGGAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
20 4 0.11
21 15 0.39
22 15 0.39
23 4 0.11
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.22
Consensus pattern (22 bp):
AGGGAGTATCGATACCATAAGC
Found at i:94849 original size:58 final size:58
Alignment explanation
Indices: 94787--94953 Score: 210
Period size: 59 Copynumber: 2.9 Consensus size: 58
94777 ATTACCAAAT
* *
94787 GGCACTTCGTGTGCAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTCAATATAG
1 GGCACTTCGTGTGCAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCAATATAG
* ** * ** *
94845 GGCACTTCGTGTTCTAACGTGATAAGAAATTCATACTAAGTGTATTAATTTCTGTATCG
1 GGCACTTCGTGTGC-AAAATGATAAGAAATTCATACTAAGTGTATGAATTTCAATATAG
* *
94904 GGCACCTT-GTGTGCTAAATGATAAGAAATTCATACTAAGTGTAGGAATTT
1 GGCA-CTTCGTGTGCAAAATGATAAGAAATTCATACTAAGTGTATGAATTT
94954 TCGTATGGAA
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
58 44 0.48
59 45 0.49
60 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (58 bp):
GGCACTTCGTGTGCAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCAATATAG
Found at i:95537 original size:68 final size:68
Alignment explanation
Indices: 95336--95519 Score: 307
Period size: 68 Copynumber: 2.7 Consensus size: 68
95326 GAATAAAGGT
*
95336 CTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTAA
1 CTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGA
*
95401 AGC
66 GGC
*
95404 CTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGA
1 CTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGA
95469 GGC
66 GGC
* *
95472 CTAACTGTGCAATTTG-CAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 CTAACTGTGC-ATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
95520 CGGTTAAGTA
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
68 105 0.96
69 4 0.04
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (68 bp):
CTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGA
GGC
Found at i:95604 original size:81 final size:81
Alignment explanation
Indices: 95469--95761 Score: 462
Period size: 81 Copynumber: 3.6 Consensus size: 81
95459 GTGTCTTTGA
* *
95469 GGCCTAACTGTGCAATTTGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTATCGT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
95534 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
95550 GGCCTAATTGTGCAATTGGCATAAAGGTGTCAATTATGCCAGTTAGATAAACGGTTAAGTACCTT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
95615 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
95631 GGCCTAACTGTGTAATTGGAAGAAAGTTGTCAATTATGCCAGTTAGATGAACGATTAAGTACCGT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
95696 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * *
95712 GGCCTAATTGTGC-ATGGGCAGAAAGGTGTCAATTATACCAGTTAGATGAA
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
95762 TGTTACACAC
Statistics
Matches: 192, Mismatches: 20, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
80 33 0.17
81 159 0.83
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
TGAGTAAAAGAATAAT
Found at i:95850 original size:2 final size:2
Alignment explanation
Indices: 95843--95897 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
95833 TGAAAGGATA
95843 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95885 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
95898 ACGTTCAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:96835 original size:22 final size:21
Alignment explanation
Indices: 96810--96850 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
96800 AGTAAAACTT
96810 AGTGAGACAATAACATAACTAA
1 AGTGAGACAA-AACATAACTAA
* *
96832 AGTGATATAAAACATAACT
1 AGTGAGACAAAACATAACT
96851 TTCTTAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.22
Consensus pattern (21 bp):
AGTGAGACAAAACATAACTAA
Found at i:109784 original size:40 final size:40
Alignment explanation
Indices: 109699--109787 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
109689 CTTCCACAAG
* * *** * *
109699 TTTCTAGAGAGTTCTACACTTCTCTAGAGTTCTCCGGAAT
1 TTTCTAGAAAATTCTACACTTCTCTAGAAAGCACCAGAAT
* *
109739 GTTCTAGAAAATTCTACACTTCTCTAGAAAGCACTAGAAT
1 TTTCTAGAAAATTCTACACTTCTCTAGAAAGCACCAGAAT
109779 TTTCTAGAA
1 TTTCTAGAA
109788 CCTCTCCAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (40 bp):
TTTCTAGAAAATTCTACACTTCTCTAGAAAGCACCAGAAT
Found at i:124423 original size:10 final size:10
Alignment explanation
Indices: 124410--124437 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
124400 CTTCCACTCC
124410 CTTCCATATT
1 CTTCCATATT
124420 CTTCCATATT
1 CTTCCATATT
124430 CTTCCATA
1 CTTCCATA
124438 AGGTTCCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.46
Consensus pattern (10 bp):
CTTCCATATT
Found at i:124569 original size:40 final size:40
Alignment explanation
Indices: 124491--124578 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
124481 TTCCATAAGC
* * ***
124491 TTCTAGAGAGTTCTACACTTCTCTAGAGTTCTCCAGAATG
1 TTCTAGAAAATTCTACACTTCTCTAGAAAGCTCCAGAATG
* *
124531 TTCTAGAAAATTCTACACTTCTCTAGAAAGCTCTAGAATT
1 TTCTAGAAAATTCTACACTTCTCTAGAAAGCTCCAGAATG
124571 TTCTAGAA
1 TTCTAGAA
124579 CCTCTCCAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (40 bp):
TTCTAGAAAATTCTACACTTCTCTAGAAAGCTCCAGAATG
Found at i:124875 original size:12 final size:12
Alignment explanation
Indices: 124858--124884 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
124848 GTTCTAATGC
124858 ATATTTTTTCTT
1 ATATTTTTTCTT
124870 ATATTTTTTCTT
1 ATATTTTTTCTT
124882 ATA
1 ATA
124885 ATGCATGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (12 bp):
ATATTTTTTCTT
Found at i:125116 original size:83 final size:83
Alignment explanation
Indices: 124914--125238 Score: 589
Period size: 83 Copynumber: 3.9 Consensus size: 83
124904 ACTGCAATTA
*
124914 AAAAACTTCAACAATTATCTATCGACGATCCACTATCTCTCAATGAAGAGAGACGTTTGAAAGAA
1 AAAAACTTCAACAATTATCTATCGACGATCCACTATCTCCCAATGAAGAGAGACGTTTGAAAGAA
*
124979 GAA-TTTTATTTATACCG
66 GAATTTTTATCTATACCG
*
124996 AAAAACTTCAACAATTATCTATCGACGATCCACTATCTCCCAAAGAAGAGAGACGTTTGAAAGAA
1 AAAAACTTCAACAATTATCTATCGACGATCCACTATCTCCCAATGAAGAGAGACGTTTGAAAGAA
*
125061 GAATTTTTATCTATATCG
66 GAATTTTTATCTATACCG
*
125079 AAAAACTTCAACAATTATCTATCGACGATCCACTATCTCCCAATGAAGAAAGACGTTTGAAAGAA
1 AAAAACTTCAACAATTATCTATCGACGATCCACTATCTCCCAATGAAGAGAGACGTTTGAAAGAA
125144 GAATTTTTATCTATACCG
66 GAATTTTTATCTATACCG
*
125162 AAAAACTTCAACAATTATCTATCGACGATCCACTATCTCCCAATGAAGAGAGAAGTTTGAAAGAA
1 AAAAACTTCAACAATTATCTATCGACGATCCACTATCTCCCAATGAAGAGAGACGTTTGAAAGAA
125227 GAATTTTTATCT
66 GAATTTTTATCT
125239 GGTTCTATAC
Statistics
Matches: 233, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
82 66 0.28
83 167 0.72
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (83 bp):
AAAAACTTCAACAATTATCTATCGACGATCCACTATCTCCCAATGAAGAGAGACGTTTGAAAGAA
GAATTTTTATCTATACCG
Found at i:126886 original size:23 final size:22
Alignment explanation
Indices: 126839--126899 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
126829 ATTTATAGTG
* *
126839 TATAGTATATATGTATATTGTT
1 TATATTATATATATATATTGTT
126861 TATATTATATAGTATATA-TGTAT
1 TATATTATATA-TATATATTGT-T
*
126884 TATATTGTATACTATA
1 TATATTATATA-TATA
126900 ATTATATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 13 0.39
23 20 0.61
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (22 bp):
TATATTATATATATATATTGTT
Found at i:126893 original size:52 final size:53
Alignment explanation
Indices: 126809--126920 Score: 131
Period size: 52 Copynumber: 2.1 Consensus size: 53
126799 AGTATAAACG
* * *
126809 TATTATATGACTATATATTTATTTATAGTGTATAGTATATATGTATAT-TGTTTA
1 TATTATATGACTATATATGTATTTATAGTGTATACTATA-AT-TATATATGTATA
* *
126863 TATTATAT-AGTATATATGTA-TTATATTGTATACTATAATTATATAATGTATA
1 TATTATATGACTATATATGTATTTATAGTGTATACTATAATTATAT-ATGTATA
126915 TATTAT
1 TATTAT
126921 GCCGTTACAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
50 5 0.10
51 2 0.04
52 26 0.51
53 10 0.20
54 8 0.16
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.53
Consensus pattern (53 bp):
TATTATATGACTATATATGTATTTATAGTGTATACTATAATTATATATGTATA
Found at i:126894 original size:7 final size:8
Alignment explanation
Indices: 126789--126917 Score: 61
Period size: 7 Copynumber: 15.4 Consensus size: 8
126779 TATATTAATT
126789 TATGCTATA
1 TATG-TATA
126798 TA-GTATA
1 TATGTATA
* *
126805 AACGTATTA
1 TATGTA-TA
126814 TATGACTATA
1 TATG--TATA
* *
126824 TATTTATT
1 TATGTATA
*
126832 TATAGTGTA
1 TAT-GTATA
126841 TA-GTATA
1 TATGTATA
126848 TATGTATA
1 TATGTATA
*
126856 T-TGTTTA
1 TATGTATA
126863 TAT-TATA
1 TATGTATA
126870 TA-GTATA
1 TATGTATA
126877 TATGTATTA
1 TATGTA-TA
126886 TATTGTATA
1 TA-TGTATA
*
126895 CTATAATTATA
1 -TAT--GTATA
126906 TAATGTATA
1 T-ATGTATA
126915 TAT
1 TAT
126918 TATGCCGTTA
Statistics
Matches: 92, Mismatches: 13, Indels: 31
0.68 0.10 0.23
Matches are distributed among these distances:
7 28 0.30
8 22 0.24
9 22 0.24
10 12 0.13
11 8 0.09
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (8 bp):
TATGTATA
Found at i:126963 original size:15 final size:14
Alignment explanation
Indices: 126938--127013 Score: 59
Period size: 15 Copynumber: 5.2 Consensus size: 14
126928 CATGTCCTCG
126938 TATAT-TATATAGCA
1 TATATATATATA-CA
*
126952 TATATATATATATTA
1 TATATATATATA-CA
126967 TATCATTATATATACA
1 TAT-A-TATATATACA
126983 CTATAT-TAT-TACA
1 -TATATATATATACA
*
126996 TATTATACATATACA
1 TA-TATATATATACA
127011 TAT
1 TAT
127014 TCATTCTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
12 2 0.04
13 7 0.14
14 11 0.22
15 17 0.33
16 3 0.06
17 11 0.22
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.46
Consensus pattern (14 bp):
TATATATATATACA
Found at i:126987 original size:19 final size:19
Alignment explanation
Indices: 126954--126998 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
126944 ATATAGCATA
* *
126954 TATATATATATTATATCAT
1 TATATATACACTATATCAT
*
126973 TATATATACACTATATTAT
1 TATATATACACTATATCAT
*
126992 TACATAT
1 TATATAT
126999 TATACATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (19 bp):
TATATATACACTATATCAT
Found at i:128024 original size:18 final size:18
Alignment explanation
Indices: 127981--128025 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
127971 TTTCTTTTAT
*
127981 TTTTTTTATTTAATTCAC
1 TTTTTTTATTTAATTCAA
*
127999 GTTTTTTATTTAATT-AA
1 TTTTTTTATTTAATTCAA
128016 TTTTATTTAT
1 TTTT-TTTAT
128026 GTTCTTTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTTTTATTTAATTCAA
Found at i:133007 original size:20 final size:21
Alignment explanation
Indices: 132953--133015 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
132943 GATTCCCCTG
132953 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
132977 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
132997 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
133016 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:136837 original size:20 final size:20
Alignment explanation
Indices: 136812--136849 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
136802 GAGTTTGTTT
136812 TCATTTTTCA-ATTTTAAACA
1 TCATTTTT-ATATTTTAAACA
136832 TCATTTTTATATTTTAAA
1 TCATTTTTATATTTTAAA
136850 AACAATTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (20 bp):
TCATTTTTATATTTTAAACA
Found at i:143730 original size:75 final size:75
Alignment explanation
Indices: 143602--143992 Score: 238
Period size: 85 Copynumber: 4.9 Consensus size: 75
143592 GCTCAATGAG
* * * * * *
143602 ATAATGGCTATTTGTCAACAAAAACCTTCGAGTTCGATTCTATTCAGCTCAAGGTCATATCAAAT
1 ATAAGGGCTATCTATCAACAAAAACCTTCGAGTTCGATTCCATTCAACTCAAGGGCATATCAAAT
143667 TTTTAAGGCA
66 TTTTAAGGCA
143677 ATAAGGGCTATCTATCAACAAAAACCTTCGAGTTCGATTCCATTCAACTCAAGGGCATATCAAAT
1 ATAAGGGCTATCTATCAACAAAAACCTTCGAGTTCGATTCCATTCAACTCAAGGGCATATCAAA-
143742 TTACAGTATAGCTCAAGGCGA
65 TT----T-T---T-AAGGC-A
* * ** ** * *
143763 A-AATGGATATCTATCAATGAAAACCTTCGAGTTCGATTATATTCAGCTCAAGGGCATATTAAAT
1 ATAAGGGCTATCTATCAACAAAAACCTTCGAGTTCGATTCCATTCAACTCAAGGGCATATCAAA-
*
143827 TTACAGCATAGTTTAAGGCG
65 -T------T--TTTAAGGCA
* * *
143847 AGAAGGGCTATCTGTCAAC-AAAACCTTCGAGTTCGATT--A---AGCTCAAGGGCATATCAAAT
1 ATAAGGGCTATCTATCAACAAAAACCTTCGAGTTCGATTCCATTCAACTCAAGGGCATATCAAAT
*
143906 TTACGGCATAGCTCAAGGCT
66 TT------T---T-AAGGCA
* * * * *
143926 AGAAGGGTTATCTGTCAACAAAAACCTTCGAGCTCGATTCCATTCAGCTCAAGGGCATATCAAAT
1 ATAAGGGCTATCTATCAACAAAAACCTTCGAGTTCGATTCCATTCAACTCAAGGGCATATCAAAT
143991 TT
66 TT
143993 ACAGCATAGT
Statistics
Matches: 258, Mismatches: 23, Indels: 60
0.76 0.07 0.18
Matches are distributed among these distances:
69 1 0.00
71 1 0.00
75 59 0.23
76 2 0.01
77 1 0.00
78 1 0.00
79 41 0.16
80 19 0.07
81 1 0.00
82 2 0.01
84 21 0.08
85 99 0.38
86 5 0.02
89 1 0.00
90 3 0.01
92 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (75 bp):
ATAAGGGCTATCTATCAACAAAAACCTTCGAGTTCGATTCCATTCAACTCAAGGGCATATCAAAT
TTTTAAGGCA
Found at i:143814 original size:85 final size:85
Alignment explanation
Indices: 143679--144145 Score: 631
Period size: 85 Copynumber: 5.6 Consensus size: 85
143669 TTAAGGCAAT
* * *
143679 AAGGGCTATCTATCAACAAAAACCTTCGAGTTCGATTCCATTCAACTCAAGGGCATATCAAATTT
1 AAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATATCAAATTT
* *
143744 ACAGTATAGCTCAAGGCGAA
66 ACAGCATAGCTCAAGGCGAG
* * ** ** *
143764 AATGGATATCTATCAATGAAAACCTTCGAGTTCGATTATATTCAGCTCAAGGGCATATTAAATTT
1 AAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATATCAAATTT
* *
143829 ACAGCATAGTTTAAGGCGAG
66 ACAGCATAGCTCAAGGCGAG
*
143849 AAGGGCTATCTGTCAAC-AAAACCTTCGAGTTCGATT--A---AGCTCAAGGGCATATCAAATTT
1 AAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATATCAAATTT
* *
143908 ACGGCATAGCTCAAGGCTAG
66 ACAGCATAGCTCAAGGCGAG
* *
143928 AAGGGTTATCTGTCAACAAAAACCTTCGAGCTCGATTCCATTCAGCTCAAGGGCATATCAAATTT
1 AAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATATCAAATTT
* *
143993 ACAGCATAGTTCAAGGTGAG
66 ACAGCATAGCTCAAGGCGAG
* * * * *
144013 AAGGGCTATCTGTCAACAAAAACCTTCGATTTCGATTCCATTCAGCTCAATGACATGTCAAATTT
1 AAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATATCAAATTT
*
144078 ACAGTATAGCTCAAGGCGAG
66 ACAGCATAGCTCAAGGCGAG
* *
144098 AAGGGATATATGTCAACAAAAACCTTCGATTTCGATTCCATTCAGCTC
1 AAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTC
144146 GATAACATAT
Statistics
Matches: 338, Mismatches: 38, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
79 53 0.16
80 18 0.05
82 2 0.01
84 19 0.06
85 246 0.73
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (85 bp):
AAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATATCAAATTT
ACAGCATAGCTCAAGGCGAG
Found at i:143923 original size:164 final size:167
Alignment explanation
Indices: 143668--144145 Score: 656
Period size: 164 Copynumber: 2.8 Consensus size: 167
143658 ATATCAAATT
* * * *
143668 TTTAAGGCAATAAGGGCTATCTATCAACAAAAACCTTCGAGTTCGATTCCATTCAACTCAAGGGC
1 TTTAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATT-CA-T-AGCTCAAGGGC
* * * **
143733 ATATCAAATTTACAGTATAGCTCAAGGCGAAAATGGATATCTATCAATGAAAACCTTCGAGTTCG
63 ATATCAAATTTACAGTATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAACCTTCGAGTTCG
** *
143798 ATTATATTCAGCTCAAGGGCATATTAAATTTACAGCATAG
128 ATTCCATTCAGCTCAAGGGCATATCAAATTTACAGCATAG
143838 TTTAAGGCGAGAAGGGCTATCTGTCAAC-AAAACCTTCGAGTTCGATT-A-AGCTCAAGGGCATA
1 TTTAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCATAGCTCAAGGGCATA
* * * * *
143900 TCAAATTTACGGCATAGCTCAAGGCTAGAAGGGTTATCTGTCAACAAAAACCTTCGAGCTCGATT
66 TCAAATTTACAGTATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATT
143965 CCATTCAGCTCAAGGGCATATCAAATTTACAGCATAG
131 CCATTCAGCTCAAGGGCATATCAAATTTACAGCATAG
* * * * *
144002 TTCAAGGTGAGAAGGGCTATCTGTCAACAAAAACCTTCGATTTCGATTCCATTCAGCTCAATGAC
1 TTTAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATT-CA-T-AGCTCAAGGGC
* * *
144067 ATGTCAAATTTACAGTATAGCTCAAGGCGAGAAGGGATATATGTCAACAAAAACCTTCGATTTCG
63 ATATCAAATTTACAGTATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAACCTTCGAGTTCG
144132 ATTCCATTCAGCTC
128 ATTCCATTCAGCTC
144146 GATAACATAT
Statistics
Matches: 272, Mismatches: 30, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
164 128 0.47
165 18 0.07
167 2 0.01
169 19 0.07
170 105 0.39
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (167 bp):
TTTAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCATAGCTCAAGGGCATA
TCAAATTTACAGTATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATT
CCATTCAGCTCAAGGGCATATCAAATTTACAGCATAG
Found at i:145012 original size:36 final size:35
Alignment explanation
Indices: 144960--145062 Score: 97
Period size: 36 Copynumber: 3.0 Consensus size: 35
144950 ATTATATGAT
*
144960 TATA-TATTTATT-TATAGTGTATAATATATATGTA
1 TATACTATATATTATATAGTGTATAATAT-TATGTA
** * * *
144994 TATTGTTTATATTATATAGTATATACATATTATGTTG
1 TATACTATATATTATATAGTGTATA-ATATTATG-TA
145031 TATACTATA-ATTATATAGTGTAT-ATATTATGT
1 TATACTATATATTATATAGTGTATAATATTATGT
145063 TGTTACATCC
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
33 1 0.02
34 11 0.20
35 6 0.11
36 27 0.48
37 11 0.20
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (35 bp):
TATACTATATATTATATAGTGTATAATATTATGTA
Found at i:145025 original size:18 final size:18
Alignment explanation
Indices: 145002--145054 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
144992 TATATTGTTT
145002 ATATTATATAGTATATAC
1 ATATTATATAGTATATAC
* * *
145020 ATATTATGTTGTATACTAT
1 ATATTATATAGTATA-TAC
*
145039 A-ATTATATAGTGTATA
1 ATATTATATAGTATATA
145055 TATTATGTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 2 0.07
18 23 0.82
19 3 0.11
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (18 bp):
ATATTATATAGTATATAC
Found at i:145096 original size:2 final size:2
Alignment explanation
Indices: 145089--145177 Score: 55
Period size: 2 Copynumber: 47.0 Consensus size: 2
145079 ATTACATAGC
* *
145089 AT AT AT AT AT AT AT AT AT AT AT -T AT CAT -T AT AT AT AC AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
* * * * *
145130 -T AT AT -T AT -T AC AT AT -T AT AC AT AT AC AT AT AC AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
145168 AT AT AC AT AT
1 AT AT AT AT AT
145178 TCATCATTTT
Statistics
Matches: 66, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
1 6 0.09
2 58 0.88
3 2 0.03
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:145122 original size:19 final size:18
Alignment explanation
Indices: 145092--145137 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
145082 ACATAGCATA
* *
145092 TATATATATATATATATAT
1 TATAT-TATATATACACAT
145111 TATCATTATATATACACAT
1 TAT-ATTATATATACACAT
145130 TATATTAT
1 TATATTAT
145138 TACATATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 17 0.71
20 2 0.08
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (18 bp):
TATATTATATATACACAT
Found at i:153085 original size:20 final size:20
Alignment explanation
Indices: 153060--153113 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
153050 GTTTGTGAGG
153060 AGGGTATTGATACTTCTTCA
1 AGGGTATTGATACTTCTTCA
* * *
153080 AGGGTATCGATAC-TGTTCG
1 AGGGTATTGATACTTCTTCA
153099 AGTGGTATTGATACT
1 AG-GGTATTGATACT
153114 CACGAAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (20 bp):
AGGGTATTGATACTTCTTCA
Found at i:162630 original size:13 final size:13
Alignment explanation
Indices: 162612--162644 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
162602 GAGCTCTTCG
162612 TCAGGCTTGGATT
1 TCAGGCTTGGATT
162625 TCAGGCTTGGATT
1 TCAGGCTTGGATT
162638 TCAGGCT
1 TCAGGCT
162645 CAATTCCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.18, G:0.30, T:0.36
Consensus pattern (13 bp):
TCAGGCTTGGATT
Found at i:167459 original size:11 final size:11
Alignment explanation
Indices: 167438--167485 Score: 69
Period size: 11 Copynumber: 4.3 Consensus size: 11
167428 CAAAAGTACT
167438 ATTATTTTTTTA
1 ATTA-TTTTTTA
167450 ATTATTTTTTA
1 ATTATTTTTTA
*
167461 ATTCTTTTTTA
1 ATTATTTTTTA
*
167472 ATTCTTTTTTA
1 ATTATTTTTTA
167483 ATT
1 ATT
167486 CATCCTAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
11 31 0.89
12 4 0.11
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTATTTTTTA
Found at i:167486 original size:11 final size:11
Alignment explanation
Indices: 167443--167486 Score: 79
Period size: 11 Copynumber: 4.0 Consensus size: 11
167433 GTACTATTAT
*
167443 TTTTTTAATTA
1 TTTTTTAATTC
167454 TTTTTTAATTC
1 TTTTTTAATTC
167465 TTTTTTAATTC
1 TTTTTTAATTC
167476 TTTTTTAATTC
1 TTTTTTAATTC
167487 ATCCTAACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTTTAATTC
Found at i:167827 original size:30 final size:30
Alignment explanation
Indices: 167770--167838 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
167760 CAAAAATTCA
* *
167770 CAACTTTTCCAAAATTATCGAATTGGTCTCC
1 CAACTTTTCAAAAATTATAGAATTGGTC-CC
167801 CAACTTTTCAAAAATTATAGAA-TGGTCCC
1 CAACTTTTCAAAAATTATAGAATTGGTCCC
*
167830 CAAATTTTC
1 CAACTTTTC
167839 TAAGGTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 10 0.29
30 5 0.14
31 20 0.57
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (30 bp):
CAACTTTTCAAAAATTATAGAATTGGTCCC
Found at i:176366 original size:132 final size:132
Alignment explanation
Indices: 176129--176385 Score: 469
Period size: 132 Copynumber: 1.9 Consensus size: 132
176119 TGAGAAAATC
* * *
176129 TACTGGAAATATGAATTTATCCACCTTTACTATGACGTCTTCTATTCTGCTGTTGGGTTGCACAT
1 TACTGGAAATACGAATTTATCCACCTTTACTATGACATCTTCTATTCTGCTGTCGGGTTGCACAT
*
176194 AAGACCGATCAGTCAACCGTAGGATGACCGAGGTAGGCTGGGCGTGATACTCGTCTAGCTTCATA
66 AAGACCGATCAGTCAACCGTAGAATGACCGAGGTAGGCTGGGCGTGATACTCGTCTAGCTTCATA
176259 AA
131 AA
176261 TACTGGAAATACGAATTTATCCACCTTTACTATGACATCTTCTATTCTGCTGTCGGGTTGCACAT
1 TACTGGAAATACGAATTTATCCACCTTTACTATGACATCTTCTATTCTGCTGTCGGGTTGCACAT
*
176326 AAGATCGATCAGTCAACCGTAGAATGACCGAGGTAGGCTGGGCGTGATACTCGTCTAGCT
66 AAGACCGATCAGTCAACCGTAGAATGACCGAGGTAGGCTGGGCGTGATACTCGTCTAGCT
176386 CGTCCTATGA
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 120 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.30
Consensus pattern (132 bp):
TACTGGAAATACGAATTTATCCACCTTTACTATGACATCTTCTATTCTGCTGTCGGGTTGCACAT
AAGACCGATCAGTCAACCGTAGAATGACCGAGGTAGGCTGGGCGTGATACTCGTCTAGCTTCATA
AA
Done.